
# 0.1.0

- Published on github

# 0.1.1

- Use regular rather than squared distances to calculate nearest
  neighbour PIs

# 0.99.0

- Submission to BioConductor

# 0.99.4

- Prediction of cell types

# 0.99.9

- Bugfixes in hyperframe building

# 0.99.10

- Reducing computation time of the examples

# 0.99.17

- Bugfix in calcnnPi

# 0.99.19

- Shorter example times

# 0.99.20

- Reducing running times of examples to pass R CMD CHECK

# 0.99.21

- Bugfix in buildDataFrame

# 0.99.23

- Added addNuclei() function for adding nuclei as spatstat::owin

# 0.99.24

- Nuclei can be plotted using plotExplore()

# 0.99.25

- ggplot2 objects are now returned for user customization
- Repeated return() calls are omitted
- NEWS file was updated to reflect all changes

# 0.99.26

- Version bump with serial processing to find bug occurring only on
  server

# 0.99.30

- Reduce computation time of tests and vignettes in view of BioConductor
  server warnings
- Automate choice of parallel backend for different operating systems in
  vignette

# 0.99.36

- Simplify documentation and reducing example runtimes by pooling
  manpages using the rdname commend

# 0.99.39

- Further round of reducing documentation and test time by pooling
  examples
- Test windows on a single core

# 0.99.40

- Use DOIs in URLs following winbuilder
- Use makeCluster() on windows in the examples too

# 0.99.41

- Clean up manpages for functions sharing the same example set

# 0.99.42

- Reviewed all manpages, clarifying user options

# 0.99.43

- Fixed bug on windows using bpnworkers()

# 0.99.44

- Limit number of features to avoid windows timeout

# 1.2.1

- Allow to pass own colours to plotExplore

# 1.2.2

- Calculate nnPair PIs only between desired features

# 1.2.3

- Some speedups in the buildDataFrame function
- With reference to bioRxiv preprint

# 1.2.4

- Optimize addWeightFunction

# 1.2.5

- Export loadBalanceBplappy for use in other packages
- Mention Bioconductor installer in README

# 1.2.6

- Removing functionality related to Moran’s I
- Speed up and reduce memory requirements of linear (mixed) model
  fitting by preparing design matrices only once
- Correct bug in weighting for cell-wise nn distributions

# 1.2.7

- Remove memory intensive looping over features in data preparation for
  mixed-effect modelling
- Depend on Rfast package for fast rowsorting
- Include tikzpicture as schematic overview in readme

# 1.2.8

- Export some convenience functions for other packages

# 1.2.9

- Added citation file to refer to the preprint directly
- Make sure vignettes are build upon installation and mentioned in
  readme

# 1.2.10

- Allow addition of scale bars in plotExplore and plotCells

# 1.4.1

- Anticipate coming changes to lme4

# 1.4.2

- Adapt code for negative hypergeometric from the orphaned extraDistr package and take it in-house

# 1.4.3

 - Switch to mgcv::scasm for monotonically decreasing p-splines

# 1.4.4

 - Fix bugs when only a single feature is being tested for
 - Add missing chunk labels in vignette
 
# 1.5.1

 - Switch to SnowParam for multithreading on windows
 
# 1.5.2

 - When building the vignette, use serial processing on windows
 
# 1.5.3

 - Update citation file to main publication
 
# 1.5.4

 - Cleaning code with the help of the goodpractice suggestions
